LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_215.5wLII_11184_49
Total number of 3D structures: 9
LGA calculations using distance cutoff DIST: 4.0 A
Residues superimposed below 2.00 A: GREEN
Residues superimposed below 4.00 A: YELLOW
Residues superimposed below 6.00 A: ORANGE
Residues superimposed below 8.00 A: BROWN
Residues superimposed above 8.00 A or not aligned: RED
Terminal residues not aligned: GREY
Structure Deviation Summary
Calculations based on one final LGA superposition
(Bar representation of 3D plots, TEXT)
Structures ordered by LGA_S - score
Structure |
NS |
NT |
N(dist=4.0) |
RMSD(N) |
Seq_ID(N) |
LGA_S |
LGA_Q |
PLOTS |
2k1s_A |
149 |
134 |
126 |
0.57 |
25.40 |
93.955 |
18.910 |
T P |
1r1m_A |
140 |
134 |
112 |
1.43 |
24.11 |
80.280 |
7.321 |
T P |
3cyp_C |
134 |
134 |
106 |
1.75 |
17.92 |
72.519 |
5.742 |
T P |
1oap_A |
108 |
134 |
104 |
1.93 |
26.92 |
69.956 |
5.125 |
T P |
2hqs_H |
108 |
134 |
102 |
2.01 |
26.47 |
65.025 |
4.825 |
T P |
2aiz_P |
134 |
134 |
95 |
1.86 |
24.21 |
62.897 |
4.847 |
T P |
2zf8_A |
246 |
134 |
83 |
2.17 |
20.48 |
49.234 |
3.651 |
T P |
1tia_A |
271 |
134 |
66 |
2.80 |
16.67 |
32.841 |
2.275 |
T P |
1prx_A |
220 |
134 |
59 |
2.97 |
8.47 |
29.107 |
1.923 |
T P |
NS : Total number of residues in Structure (rotated structure)
NT : Total number of residues in TARGET (frame of reference)
N : Total number of residues superimposed under 4.0 Angstrom distance cutoff
RMSD : RMS deviation calculated on all N residues superimposed under 4.0 Angstrom distance cutoff
Seq_Id : Sequence Identity. Percent of identical residues from the total of N aligned.
LGA_S : Structure similarity score calculated by internal LGA procedure (see LGA paper for details)
LGA_Q : Score (how tight is the superposition) calculated by the formula: Q = 0.1*N/(0.1+RMSD)
PLOTS : T - Flat text file (output from LGA program, rotated structure)
PLOTS : P - Plot of superimposed structures (3D plot colored as bars)
Citing LGA:
Zemla A., "LGA - a Method for Finding 3D Similarities in Protein Structures",
Nucleic Acids Research, 2003, Vol. 31, No. 13, pp. 3370-3374.
[MEDLINE]